genome.fa.s8685.2.7.7.80.10.50.1000.15.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3669133

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  15  of  19  ( 2244 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2908996--2909067	30	2.4	30	80	17	78	29	18	12	40	1.87
2908815--2909067	132	1.9	129	81	10	298	28	17	14	39	1.89
2908912--2909133	96	2.3	97	81	11	258	27	19	14	39	1.90
2909174--2909526	131	2.7	131	89	0	519	25	30	16	27	1.97
2909737--2909782	20	2.3	19	85	14	58	50	8	15	26	1.73
2918340--2918417	21	3.7	21	84	0	102	25	28	20	25	1.99
2919227--2919331	46	2.3	46	79	9	108	25	16	20	37	1.93
2919430--2919472	22	2.1	19	87	12	59	37	23	2	37	1.68
2922722--2922767	20	2.3	19	85	14	58	50	8	15	26	1.73
2924391--2924427	3	12.3	3	88	11	58	32	0	0	67	0.91
2928627--2928689	3	21.3	3	95	3	110	34	0	0	65	0.93
2929991--2930030	17	2.4	17	87	8	55	47	0	0	52	1.00
2930674--2930727	28	2.0	27	85	3	72	29	3	1	64	1.21
2941339--2941399	10	5.8	10	75	17	61	80	1	18	0	0.80
2941344--2941402	6	9.7	6	79	20	61	79	1	18	0	0.81
2941336--2941400	22	3.1	20	75	18	69	80	1	18	0	0.80
2941339--2941402	33	1.9	33	87	6	94	79	1	18	0	0.81
2941339--2941401	27	2.4	25	87	12	83	80	1	17	0	0.78
2942540--2943091	83	6.7	83	92	2	921	26	13	23	36	1.92
2942540--2943091	249	2.2	249	98	0	1061	26	13	23	36	1.92
2943038--2943122	29	3.2	29	60	30	71	28	15	23	32	1.95
2943040--2943139	50	2.0	50	98	0	191	26	15	22	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2942973--2943224	133	1.9	133	91	1	416	26	13	22	37	1.91
2943958--2944469	113	4.5	113	90	6	754	37	11	19	31	1.88
2943958--2944469	225	2.3	225	87	6	743	37	11	19	31	1.88
2944439--2944525	38	2.3	38	90	5	133	50	8	25	16	1.72
2944316--2944644	148	2.2	151	91	8	557	40	10	20	27	1.86
2944887--2944937	3	17.3	3	93	4	86	35	0	0	64	0.94
2945283--2945764	241	2.0	241	98	1	932	30	18	24	27	1.98
2946003--2946042	17	2.4	17	87	8	55	47	0	0	52	1.00
2947924--2948085	86	1.9	86	88	2	245	27	18	19	35	1.95
2948261--2948398	21	6.7	21	71	6	77	36	24	17	21	1.94
2948365--2948519	40	3.8	40	82	4	186	37	26	18	18	1.93
2948365--2948518	20	7.7	20	80	7	168	37	26	18	18	1.93
2948898--2948968	33	2.2	33	92	0	115	11	22	18	47	1.80
2949060--2949147	19	4.9	19	68	17	71	44	20	22	12	1.85
2949088--2949166	33	2.4	33	97	0	149	44	22	22	10	1.83
2949105--2949161	14	3.7	14	72	20	51	43	22	22	10	1.84
2949174--2949299	19	7.1	19	69	18	101	11	23	19	44	1.84
2949196--2949252	14	3.7	14	72	20	51	10	22	22	43	1.84
2949179--2949299	33	3.5	33	90	6	179	11	23	19	45	1.83
2950316--2950585	20	13.5	20	87	1	290	20	17	25	37	1.94
2950552--2950649	21	4.7	21	75	6	74	22	18	21	37	1.94
2950552--2950650	42	2.4	43	77	11	100	22	18	22	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2959075--2959151	20	3.8	20	75	14	61	15	25	33	24	1.95
2961264--2961352	31	3.0	31	93	6	150	32	6	17	42	1.76
2961417--2961482	19	3.5	19	89	2	80	40	9	13	36	1.76
2961584--2961625	21	2.0	21	85	0	57	23	23	26	26	2.00
2961654--2961693	20	1.9	21	85	10	55	37	37	10	15	1.80
2967051--2967111	23	2.7	23	87	2	88	19	24	31	24	1.98
2978670--2979152	74	6.5	74	85	4	580	42	13	11	32	1.80
2978670--2979152	147	3.2	148	84	3	614	42	13	11	32	1.80
2984268--2984667	44	9.0	43	73	15	275	48	6	20	24	1.73
2984348--2984600	140	1.8	141	82	6	334	49	6	21	22	1.73
2984678--2984775	29	3.2	33	81	14	127	59	10	14	16	1.61
2984709--2984783	29	2.7	28	86	8	109	57	13	14	14	1.66
2985244--2985336	21	4.5	21	78	4	100	39	18	24	17	1.91
2985244--2985336	41	2.3	41	100	0	186	39	18	24	17	1.91
2985263--2985397	41	3.3	41	82	6	132	38	20	21	19	1.94
2985325--2985419	20	4.7	20	80	2	91	34	24	17	23	1.96
2985604--2985647	22	2.0	22	95	0	79	20	45	15	18	1.85
2987264--2987308	18	2.5	18	88	0	72	26	44	15	13	1.83
2987781--2987836	20	2.8	20	83	2	69	37	23	23	16	1.93
2987836--2987891	14	3.7	14	76	17	58	50	25	16	8	1.74
2987820--2987893	32	2.3	33	95	2	132	45	22	18	12	1.83
2987908--2987965	14	3.9	14	72	16	53	10	15	24	50	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2987903--2987981	32	2.4	33	89	2	124	11	17	22	48	1.79
2987954--2988010	20	2.9	20	76	2	62	15	21	21	42	1.89
2990029--2990089	14	4.0	14	75	19	50	45	18	21	14	1.84
2990039--2990158	19	6.8	19	81	16	161	46	16	21	15	1.83
2990010--2990158	33	4.4	33	83	8	190	44	18	22	14	1.86
2990058--2990089	14	2.3	14	94	0	55	46	15	21	15	1.83
2990177--2990234	20	2.9	20	94	0	98	17	22	20	39	1.92
2991294--2991347	24	2.2	24	90	0	81	24	16	20	38	1.92
2991521--2991545	12	2.1	12	100	0	50	72	0	28	0	0.86
2993810--2993864	14	3.6	14	73	21	56	45	20	23	10	1.82
2993792--2993951	33	4.8	33	90	3	259	43	19	22	14	1.87
2994134--2994170	14	2.6	14	91	0	65	45	24	0	29	1.53
2995525--2995591	21	3.2	21	68	4	55	19	20	35	23	1.95
2995525--2995647	42	2.9	41	80	7	113	22	17	36	22	1.95
2997672--2997770	33	3.0	33	89	1	144	39	26	23	11	1.88
2997647--2997831	19	10.1	19	75	14	165	44	22	21	11	1.85
2997742--2997831	39	2.3	38	92	1	144	47	22	18	11	1.80
2997827--2997907	19	4.5	19	73	16	64	12	17	23	46	1.81
2998440--2998517	41	1.9	41	86	0	111	21	16	21	39	1.92
2998421--2998514	20	4.7	20	80	2	89	23	18	24	34	1.96
2998440--2998535	41	2.3	41	80	3	104	20	19	21	37	1.94
2999288--2999340	25	2.1	26	89	3	81	32	16	15	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2999609--2999685	15	5.1	16	73	26	62	35	2	0	62	1.09
2999606--2999685	31	2.6	30	80	16	101	35	2	0	62	1.09
3000063--3000126	31	2.1	29	83	13	76	48	0	0	51	1.00
3000108--3000175	22	3.4	19	69	15	55	48	1	1	48	1.19
3000111--3000191	42	1.9	42	92	0	135	50	1	1	46	1.17
3000189--3000233	23	2.1	22	88	12	67	51	2	4	42	1.34
3000179--3000243	23	2.8	23	77	15	64	52	1	3	43	1.26
3000363--3000392	14	2.1	14	93	0	51	56	3	0	40	1.16
3000351--3000433	37	2.3	38	81	10	93	49	2	2	45	1.28
3002249--3002357	24	4.5	24	83	0	119	42	19	12	25	1.87
3004756--3004832	18	4.1	18	78	16	75	14	19	46	19	1.83
3004764--3004818	23	2.4	23	96	0	101	12	18	47	21	1.82
3005672--3005708	16	2.3	16	95	0	65	24	18	24	32	1.97
3007229--3007267	15	2.6	15	83	0	51	28	0	5	66	1.12
3011867--3011914	8	5.9	8	82	4	51	35	0	0	64	0.94
3011867--3011914	12	3.9	12	80	2	60	35	0	0	64	0.94
3011915--3011970	26	2.2	26	87	6	78	66	1	3	28	1.19
3011915--3011958	14	3.3	13	81	12	54	70	0	2	27	0.99
3011951--3011981	12	2.6	12	100	0	62	54	6	6	32	1.51
3013292--3013339	3	15.3	3	78	8	51	58	0	0	41	0.98
3013302--3013347	22	2.1	22	88	8	67	52	0	0	47	1.00
3013286--3013341	16	3.5	16	76	16	62	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3013464--3014028	76	7.4	76	95	1	952	34	21	19	24	1.97
3014874--3014927	21	2.5	22	93	6	101	38	14	11	35	1.82
3017540--3017759	114	1.9	114	95	0	395	29	22	15	31	1.95
3019891--3020009	30	3.8	30	76	9	107	2	15	2	78	0.96
3019878--3019967	37	2.5	36	85	5	119	2	14	0	83	0.74
3019879--3019932	1	54.0	1	77	0	54	0	11	0	88	0.50
3019880--3019982	7	14.4	7	83	9	120	1	15	0	82	0.76
3019889--3020009	56	2.2	53	81	12	138	2	15	2	79	0.95
3019963--3020020	27	2.0	30	87	9	86	3	15	10	70	1.28
3024567--3024591	12	2.1	12	100	0	50	84	0	8	8	0.79

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19